HsaINT0138843 @ hg19
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:21461]
Coordinates
chr9:125639750-125642152:-
Coord C1 exon
chr9:125642034-125642152
Coord A exon
chr9:125639863-125642033
Coord C2 exon
chr9:125639750-125639862
Length
2171 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
ATGTGTTCCCATTTTTGTAGCCT
3' ss Score
7.55
Exon sequences
Seq C1 exon
ACGCTGTTTCACCAACTTGGGAGCAGCTGGAAAATGCAATGGTAGCTGTTAAAACAGTAGTTCATGGCCTTGTGGACTTCATACAAAATTATAGTAGAAAAGGCCATGAGACCCCTCAG
Seq A exon
GTAAGTACATTTATTACATTTCTGACTGCTGTTGTCTCTAACTCAGTTTCATCCTGAACATCTTAACCAGCTGTTTTGTTAATTGGACTCCGTATGTGACTCATAAGTTTCTATCATCTCTATTCTTTTGGGAGGAACCCAGTTTTTAGTGTACTTGGTAAACATTTCATAGCACACCAAGAGTTTAGAGGGTATCTTGGGTGTGAGTATACTTTATTGCAGAATATTTTTGACCAAATGTAGATAATTGATTCCAAACGTTTTGTCTCATTCTTTTCTACTGTGGGAAATTGTCATTTTTTTTCTGTATTGAATTTCTATATGTAAATTTATGGAATTTGAATTTTCTTTCTTTTTTTTTTAGACAAAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGACGCTATCTCAGCTCACTGCAACCTCTGCCTCCTGAGTTCAGGTGATTCTCCTGCCTCAGCCTCCCAAGTAACTGGGATTACAGGCAAGTGCCACCACGCCCTGCTAATTTTTGTATTTTTTGTAGAGAGGGTTTTACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCTGCCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCATCGTGCCTGGCCGAAATTTGAATTTTCAAGATACTTTTCAGTGTACTTTAGAAGTTAAGATATAAACCTGGCCAGGCACAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGTTGAGGTGAGTGGATCACTTGAGGCCAGAAGTTCGAGACCAGCTTGGCCAACATGGTGAAACCCCATCTCTACTAAAAAAAAAAAAATACAAAAATGAGCCAGGCATTGTGGTGGATGCCTGTAATCCCAACTACTGAGACGGCTGAGTCAGGAGAATCGCTTGAACCCGGGAGATGGAGGCTACAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGACAGAGTGACTCTTGTCTCCAAAAATATAAAATAAAAAGAAGTTAAGATATAATCCTTTATACTTATAACTTCTATTTAATAAATTATTATGAGCCATTCACTACATTCAATGTTTTACATGTATTATTTCTTATCCTCACAGCCACCTGCAATGTAGTTGCTGTTTCCAAGCTGAAATTCAAAGAGGTTAAATAACATAAGATTGTGCTGTCAGGGGGCTGGGCGCGGTGGCTCATGTCTATAATCCCAGCACTTTGGGAGGCTGAGGCGGGCGGATCACAAGGTCAGGAGATCGAGACCATCCTGGCTAACATGGTGAAGCCCCATCTCTACTAAAAATACAAAAAATTAGCCGGGCGTGGTGGCAGGCGCCTGTAGTCCCAGCTACTTGGGAGCTCTCTGAGGCAGGGAGAATGGCCTGAACCCGGGAAGTGGAGCTTGCAGTGAGCTGAGATGGCGCCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCCGTCTCAAAGATAAAAATAAAAAATAAAAAAGGTTGTGCTGTCAGTAAGAGCTGGGATCAAACCTACACTTTGTACTCTTCTCTCCTTATTCTTAGAAGATATTATAACTTAAAATATTAAAAACAAATGTTTTCATCCTAGGCTCATAAGAATAAGAATGTCTTAGATTTTGATGCAAATTGTAGAAGTAATAGTGAAATTTTAATATTCTGCCTCATTGTATGAACTCAAATAGTTTAAGCCTGAGAGTTGCACCCTCAAGCTGACAAGTGAATTGGTAATTTTTCACTTCTAGGTGGAATTGTATTCTACCTTTTCTGAGAAAGTTTAAGTAGACAAAGCTTTTGGTTTTTTTTTAATGCTTTTTAAAATTGTTTGATTTTGGTAGCAGAATTTTAAGACAGCAATAAATTGATGAAAAAATATTTTCTTTTTCTGGGCATTCTGTTAACTAATGAATAAATGGACATAACATTTGAACCAGTTTCGAATAATCTTCAGAAGGAATATCTGAAGTGCCAATTCAGGGTTATGTCACATAACTCACAACAGGAAACAATGGAATATTAGTTGTTTCAGCACAAGAATTACTTGTCTAATGTGAAAAAGAATTAAAGGTGTAATTATAAAGTTCTGAACTTCCTAGAGTGAATAACAAATGGAATCTTCACCTTGCCACTCATTGAATGTGTTCCCATTTTTGTAG
Seq C2 exon
CCTCAGCCAAACAGCAAATACAAGACTAGCATGTGCCGAGATTTGCGACAGCAAGGGGGTTGTCCACGAGGAACAAATTGTACATTTGCCCATTCTCAGGAAGAGCTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056586-RC3H2:NM_018835:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.354 A=NA C2=0.594
Domain overlap (PFAM):
C1:
PF0028516=Citrate_synt=FE(25.0=100)
A:
NA
C2:
PF0028516=Citrate_synt=PD(19.2=78.9),PF0064219=zf-CCCH=WD(100=71.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)